RetrogeneDB ID: retro_ggor_1813

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 2b:111659682..111660067(-)
• Located in intron of: ENSGGOG00000008876

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSGGOG00000004759
• Aliases: None
• Description: None

Sequence

>retro_ggor_1813
GGAGCCATGAGACAACAGAATATCAAAACTGGTGAGGGCTTCCTGTTGGTCTTTTGAGTCACAGGTCAAGGCAGTTTTGG
AAAAAATCTATACATTTCAAAGACAGATTCTCAGAGTGAAAGATTATGATGAGTTTCCAATGATTTTATTTGGCAATAAA
GCAGATCTGGATCATTAAAGACAAGTAACACAGGAAGGACACAGTTAGTACGGCAACTTAAGGCAGCATACCCAGAAGGC
ATTAGCAAAGATTAGAATGAATGTAGATTAAGCTTTCCATTAACTTGTCCAAGTTATAAGGAAATTTCAAGAGCAGTAAC
TTCGTTCTTCACCAGAATCGACATGGAAAGAAAAAGACAAGAAAGGCTGCTACTGTGTCATTTTC

Alignment

ORF - retro_ggor_1813 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.76 %
• Parental protein coverage: 76.33 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  GAMREQYMRTGEGFLLVFSVTDRGSF-EEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQ-
          GAMR.Q...TGEGFLLVF.VT..GSF.E.IY.FQRQILRVKD.DEFPMIL.GNKADLDH.RQVTQ.EG..
Retrocopy GAMRQQNIKTGEGFLLVF*VTGQGSF>EKIYTFQRQILRVKDYDEFPMILFGNKADLDH*RQVTQ-EGH<

Parental  QLARQLKVTYME-ASAKIRMNVDQAFHELVRVIRKFQEQECPPSPEPTRKEKDKKGCHCVIF
          QL.RQLK..Y.E.A.AKIRMNVD.AFH.LV.VIRKFQEQ....SPE.T.KEKDKKGC.CVIF
Retrocopy QLVRQLKAAYPE>ALAKIRMNVD*AFH*LVQVIRKFQEQ*LRSSPESTWKEKDKKGCYCVIF

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP007412_brain_prefrontal_cortex	0.00 RPM	3.45 RPM
SRP007412_cerebellum	0.00 RPM	3.94 RPM
SRP007412_heart	0.00 RPM	2.28 RPM
SRP007412_kidney	0.00 RPM	9.28 RPM
SRP007412_liver	0.00 RPM	6.38 RPM
SRP007412_testis	0.00 RPM	10.05 RPM

ChIP-Seq

Gorilla gorilla was not studied using ChIP-Seq data.

EST

Gorilla gorilla was not studied using EST data.

TSS

Gorilla gorilla was not studied using FANTOM5 data.

Lab

retro_ggor_1813 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1813 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 21 parental genes, and 35 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000002367	1 retrocopy	retro_amel_947,
Bos taurus	ENSBTAG00000011905	1 retrocopy	retro_btau_1295,
Choloepus hoffmanni	ENSCHOG00000003135	7 retrocopies	retro_chof_111, retro_chof_1639, retro_chof_2065, retro_chof_2644, retro_chof_2706, retro_chof_389, retro_chof_521,
Dasypus novemcinctus	ENSDNOG00000011828	6 retrocopies	retro_dnov_124, retro_dnov_1458, retro_dnov_1708, retro_dnov_1779, retro_dnov_2331, retro_dnov_988,
Erinaceus europaeus	ENSEEUG00000000240	1 retrocopy	retro_eeur_531,
Felis catus	ENSFCAG00000009578	1 retrocopy	retro_fcat_386,
Homo sapiens	ENSG00000133818	1 retrocopy	retro_hsap_390,
Gorilla gorilla	ENSGGOG00000004759	1 retrocopy	retro_ggor_1813 ,
Myotis lucifugus	ENSMLUG00000007005	1 retrocopy	retro_mluc_1264,
Macaca mulatta	ENSMMUG00000000664	2 retrocopies	retro_mmul_1604, retro_mmul_965,
Monodelphis domestica	ENSMODG00000028397	2 retrocopies	retro_mdom_1254, retro_mdom_577,
Oryctolagus cuniculus	ENSOCUG00000011362	1 retrocopy	retro_ocun_1645,
Otolemur garnettii	ENSOGAG00000027655	1 retrocopy	retro_ogar_1081,
Ochotona princeps	ENSOPRG00000005967	1 retrocopy	retro_opri_2,
Pongo abelii	ENSPPYG00000025912	1 retrocopy	retro_pabe_3043,
Pan troglodytes	ENSPTRG00000003383	2 retrocopies	retro_ptro_1747, retro_ptro_301,
Rattus norvegicus	ENSRNOG00000012258	1 retrocopy	retro_rnor_750,
Ictidomys tridecemlineatus	ENSSTOG00000022169	1 retrocopy	retro_itri_1457,
Tupaia belangeri	ENSTBEG00000001292	1 retrocopy	retro_tbel_3234,
Tursiops truncatus	ENSTTRG00000010419	1 retrocopy	retro_ttru_1218,
Vicugna pacos	ENSVPAG00000008814	1 retrocopy	retro_vpac_165,